Genomics

Explore & download genomics & transcriptomics data

Overview

The Allen Institute for Cell Science has generated a collection of fluorescently tagged hiPSC clonal lines representing the major structures of the cell. All cell lines were generated using the wild type C hiPS cell line (WTC line) as the parental cell line. To establish a reference profile, we performed whole genome sequencing and population RNA-Seq on the WTC line. As part of our quality control process, we use whole exome sequencing and population RNA-Seq to evaluate any changes in the transcriptional profiles and exomes of our fluorescently tagged hiPSC lines relative to the parental WTC line. Raw data is available upon request - please email ​cells@alleninstitute.org.

Parental WTC Genome

Download WTC vcf file below. Local realignment around indels and base quality recalibration were performed using GATK (version 3.5). Variants were called using GATK's HaplotypeCaller and filtered using variant quality score recalibration.